Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across many key fields in biology, including genomics, systems biology, development, medicine, evolution, ecology, and systematics. Here we survey the current phenomics landscape, including data resources and handling, and the progress that (...) has been made to accurately capture relevant data descriptions for phenotypes. We present an example of the kind of integration across domains that computable phenotypes would enable, and we call upon the broader biology community, publishers, and relevant funding agencies to support efforts to surmount today's data barriers and facilitate analytical reproducibility. (shrink)

It is widely suspected that arguments from conceivability, at least in some of their more notorious instances, are unsound. However, the reasons for the failure of conceivability arguments are less well agreed upon, and it remains unclear how to distinguish between sound and unsound instances of the form. In this paper I provide an analysis of the form of arguments from conceivability, and use this analysis to diagnose a systematic weakness in the argument form which reveals all its instances to (...) be, roughly, either uninformative or unsound. I illustrate this conclusion through a consideration of David Chalmers. (shrink)

"In the United States, we try to comfort ourselves with the belief that this country, as the leading world power and industrial democracy, is different from the rest of the world--that we have solved our day-to-day problems. Such optimism--undergirded with the best of intentions--obscures the reality of the social problems that remain among us. To name only a few, these include violence, drugs, and other crime illiteracy, homelessness, and poverty and the rising rate of illegitimacy in our society. "A vigorous (...) debate over these issues, which are of such pressing concern, is taking place now in our country. It largely concerns the means we should use to address them: What is the proper role of the government in solving these problems without depriving individuals of their right to shape their own destinies?" --from the Introduction by Andrew R. Cecil. (shrink)

One of the aspects of consciousness deserving of study is what might be called its subjective unity - the way in which, though conscious experience moves from object to object, and can be said to have distinct ‘states', it nevertheless in some sense apparently forms a singular flux divided only by periods of unconsciousness. The work of William James provides a valuable, and rather unique, source of analysis of this feature of consciousness; however, in my opinion, this component of James’ (...) theory of the mind has so far gone under-emphasized in the scholarly literature. This paper undertakes some philosophical geography, trying to draw out and elucidate some of the relevant ideas from James’ corpus, and also subjects those ideas to some analysis to try and assist in judgements of their current importance. (shrink)

"The French philosopher Nicolas Malebranche popularized the doctrine of occasionalism in the late seventeenth century. Occasionalism is the thesis that God alone is the true cause of everything that happens in the world, and created substances are merely "occasional causes." This doctrine was originally developed in medieval Islamic theology, and was widely rejected in the works of Christian authors in medieval Europe. Yet despite its heterodoxy, occasionalism was revived starting in the 1660s by French and Dutch followers of the philosophy (...) of René Descartes. Since the 1970s, there has been a growing body of literature on Malebranche and occasionalism. There has also been new work on the Cartesian occasionalists before Malebranche - including Arnold Geulincx, Geraud de Cordemoy and Louis de la Forge. But to date there has not been a systematic, book-length study of the reasoning that led Cartesian thinkers to adopt occasionalism, and the relationship of their arguments to Descartes' own views. This book expands on recent scholarship, to provide the first comprehensive account of seventeenth century occasionalism. Part I contrasts occasionalism with a theory of divine providence developed by Thomas Aquinas, in response to medieval occasionalists; it shows that Descartes' philosophy is compatible with Aquinas' theory, on which God "concurs" in all the actions of created beings. Part 2 reconstructs the arguments of Cartesians - such as Cordemoy and a Forge - who used Cartesian physics to argue for occasionalism. Finally, it shows how Malebranche's case for occasionalism combines philosophical theology with Cartesian metaphysics and mechanistic science"--. (shrink)

Are qualia natural kinds? In order to give this question slightly more focus, and to show why it might be an interesting question, let me begin by saying a little about what I take qualia to be, and what natural kinds. For the purposes of this paper, I shall be assuming a fairly full-blooded kind of phenomenal realism about qualia: qualia, thus, include the qualitative painfulness of pain (rather than merely the functional specification of pain states), the qualitative redness in (...) the visual field that typically accompanies red discriminations, the taste of lemon (independently of the fact that such states are normally caused by lemons and give rise to puckering of the lips, etc.), and so on. In other words, I am assuming the falsity of functionalism with respect to qualia, though I am not for a moment assuming dualism. (shrink)

Qualia have historically been thought to stand in a very different epistemological relation to the knower than does the external furniture of the world. The ‘raw feels’ of thought were often said to be ‘given’, while what we might call the content of that thought – for example, claims about the external world – was thought only more or less doubtfully true; and this was often said to be because we are ‘directly’ or ‘non-inferentially’ confronted by qualia or experiences, whereas (...) all other properties or objects are only mediately ‘connected’ to the perceiver. The modern turn in philosophy – spearheaded by Wittgen-stein, Sellars, Quine, Ryle and others – away from classical empiricism to today’s ‘post-postivistic’ philosophy, has apparently involved the rejection of this once familiar assumption. I argue a) that the rejection of a certain kind of epistemological foundationalism does not entail the rejection of phenomenal individuals tout court; and b) that qualia are in fact, in some epistemologically significant ways, given. (shrink)

This paper deals with the relationship between the embodied cognition paradigm and two sets of its implications: its implications for the ontology of selves, and its implications for the nature and extent of phenomenal consciousness. There has been a recent wave of interest within cognitive science in the paradigm variously called ‘embodied,’ ‘extended,’ ‘situated’ or ‘distributed’ cognition. Although ideas applied in the embodied cognition research program can be traced back to the work of Heidegger, Piaget, Vygotsky, Merleau-Ponty, and Dewey, the (...) current thesis can be seen as a direct response and, in some cases, a proposed alternative to the cognitivist/classicist rule-based, information-processing model of cognition. Embodied cognition, by contrast, arises from real-time, goal-oriented bodily interactions with the world. I lay out three relations: the implications of embodiment for consciousness; the implications of embodiment for the self; and the tension between these two. I argue that the embodiment paradigm introduces a radical split between consciousness and the self, and that it does so by deflating our pre-theoretical instincts about consciousness and self in two different directions; however, I claim, what both these theoretical movements have in common is a scepticism about the notion of a psychological container defining a boundary between ‘inside’ and ‘outside.’ (203 words). (shrink)

Fully named _Discourse on the Method for Reasoning Well and for Seeking Truth in the Sciences_, this work offers the most complete presentation and defense of René Descartes’ method of intellectual inquiry— a method that greatly influenced both philosophical and scientific reasoning in the early modern world. Descartes’s timeless ideas strike an uncommon balance of novelty and familiarity, offering arguments concerning knowledge, science, and metaphysics that are as compelling in the 21st century as they were in the 17th. Ian Johnston’s (...) new translation of the original French text is modern, clear, and thoroughly annotated, ideal for readers unfamiliar with Descartes’ intellectual context. An approachable introduction engages both the historical and the philosophical aspects of the text, enabling the reader to interpret this easily misunderstood work within Descartes’ larger project. This edition joins Broadview’s growing list of affordable classic texts from the philosophical canon, adapted from Andrew Bailey’s popular anthology series _First Philosophy_. (shrink)

Considered a foundational text in modern philosophy, the _Meditations on First Philosophy_ presents numerous powerful arguments that to this day influence debates in epistemology, the philosophy of mind, and the philosophy of religion. This new translation incorporates revisions from the second Latin edition and the later French translation to make Descartes’ reasoning as lucid and engaging as possible. Also included in this edition is a brief introduction to Descartes and the _Meditations_, revised and expanded from Andrew Bailey’s acclaimed anthology, (...) _First Philosophy_. The introduction helps the reader to understand the context and purpose of Descartes’ project without over-explaining his arguments. (shrink)

This dissertation develops and defends a detailed realist, internalist account of qualia which is consistent with physicalism and which does not resurrect the epistemological 'myth of the Given.' In doing so it stakes out a position in the sparsely populated middle ground between the two major opposing factions on the problem of phenomenal consciousness: between those who think we have a priori reasons to believe that qualia are irreducible to the physical , and those who implicitly or explicitly treat qualia (...) as contentful but non-phenomenal physical properties . ;I present a minimal, non-question-begging definition of "qualia" and then use this definition in a reformulation of the argument from perceiver relativity which shows that qualia must, at least in humans, be properties of states of the central nervous system. That is, brain states do not simply indicate the colours of external objects---they instantiate phenomenal colours. Since brain states are not coloured in the same way as are external objects, I argue that to token phenomenal property F must be to be the first-person phenomenal sensation of F. I build on this position to argue that the phenomenal apprehension of qualia, is "given"---immediate, certain and private---but that qualia nevertheless do not provide an absolutely certain epistemological foundation since they do not constitute a set of indisputable propositions about facts. I then define what it would be for physicalism to be true of qualia, but argue that the main a priori arguments for and against qualia physicalism---including the logical possibility of zombies and the impossibility of epiphenomenalism---fail. Whether qualia are consistent with physicalism, I claim, is still an open question, answerable only when we discover in more detail how qualia depend upon the brain. ;Although strongly in sympathy with many commonsensical intuitions about qualia, this account stands in contrast to most influential extant theories of qualia, such as eliminativism , externalism , or property-dualism : I conclude the dissertation by using its results to argue explicitly against these three positions. (shrink)

The first part of this paper defends a 'two-factor' approach to mental representation by moving through various choice-points that map out the main peaks in the landscape of philosophical debate about representation. The choice-points considered are: (1) whether representations are conceptual or non-conceptual; (2) given that mental representation is conceptual, whether conscious perceptual representations are analog or digital; (3) given that the content of a representation is the concept it expresses, whether that content is individuated extensionally or intensionally; (4) whether (...) intensional contents are individuated by external or internal conditions; and (5) given that conceptual content is determined externally, whether the possession conditions for concepts are external or internal. The final part of the paper examines the relationship between representation and consciousness, arguing that any account of mental representation, though necessary for a complete account of consciousness, cannot be sufficient for it. (shrink)

The jaw movements of speech are most probably derived from jaw movements associated with vocalisation. Cyclicity does not argue strongly for derivation from a cyclic pattern, because it arises readily in any system with feedback control. The appearance of regular repetition as a part of ritualisation of a display may have been important.

This paper critically supports the modern evolutionary explanation of religion popularised by David Sloan Wilson, by comparing it with those of his predecessors, namely Emile Durkheim and Thomas Hobbes, and to some biological examples which seem analogous to religions as kinds of superorganisms in their own right. The aim of the paper is to draw out a theoretical pedigree in philosophy and sociology that is reflected down the lines of various other evolutionarily minded contributors on the subject of religion. The (...) general theme is of evolved large-scale cooperative structures. A scholarly concern is as follows: Wilson draws on Durkheim, using Calvinism as an example without mentioning Hobbes, but it was Thomas Hobbes who used Calvinism as an example of a leviathanesque religious structure—which is not acknowledged by either Wilson or Durkheim. If there are even any similarities between these authors, there appears to be an omission somewhere which should rightly be accounted for by giving credit to Hobbes where it is due. I issue on conclusion, what it is that makes Wilson’s approach radically different to that it skates on. I also issue it with a cautionary word. (shrink)

Ombudsmen are profoundly a part of the ethos of newspaper journalism. In this essay, I argue that Daniel Okrent's tenure as the public editor of The New York Times provides American journalism and individual ombudsmen a model by which to meet part of the ethical standard Meyers (2000) posits. I assume that individual ombudsmen should assert moral authority in the position through a persuasive use of rhetorical ethos. The ethical appeals of Okrent and Michael Getler, ombudsman at the Washington Post, (...) were compared. Despite structural and institutional similarities in the positions, Okrent's ethical appeal fits Meyers' model and Getler's does not. (shrink)

Journal of Mass Media Ethics, Volume 26, Issue 2, Page 181-183, April-June.

Scheuer, J. (2008). The big picture: Why democracies need journalistic excellence. New York: Routledge. 187 pp., $29.95 (Pbk).In Democracy and the News, Herbert J. Gans (2003) argues that journalis...

This paper is the first of a two-part reexamination of causation in Descartes's physics. Some scholars ? including Gary Hatfield and Daniel Garber ? take Descartes to be a `partial' Occasionalist, who thinks that God alone is the cause of all natural motion. Contra this interpretation, I agree with literature that links Descartes to the Thomistic theory of divine concurrence. This paper surveys this literature, and argues that it has failed to provide an interpretation of Descartes's view that both distinguishes (...) his position from that of his later, Occasionalist followers and is consistent with his broader metaphysical commitments. I provide an analysis that tries to address these problems with earlier `Concurentist' readings of Descartes. On my analysis, Occasionalism entails that created substances do not have intrinsic active causal powers. As I read him, Descartes thinks that bodies have active causal powers that are partly grounded in their intrinsic natures. But I argue ? pace a recent account by Tad Schmaltz ? that Descartes also thinks that God immediately causes all motion in the created world. On the picture that emerges, Descartes's position is both continuous with, and a subtle departure from, the Thomisitic theory of divine concurrence. (shrink)

Presents a review of all the main aspects of work on learning and plasticity in behaviour and neural mechanisms in the chick, together with related topics such as the development of behaviour and lateralization of function.

SummaryThis article examines the disputes amongst Irish Presbyterians about the teaching of moral philosophy by Professor John Ferrie in the college department of the Royal Belfast Academical Institution in the early nineteenth century and the substantive philosophical and theological issues that were raised. These issues have largely been ignored by Irish historians, but a discussion of them is of general relevance to historians of ideas as they illuminate a series of broader questions about the definition and development of Scottish philosophy. (...) These are represented in the move from two philosophers who had strong connections with Irish Presbyterianism—Francis Hutcheson, the early eighteenth-century moral sense philosopher and theological moderate from County Down, and James McCosh, nineteenth-century exponent of modified Common Sense philosophy at Queen's College Belfast and a committed evangelical. In particular, this article addresses three important themes—the definition and character of ‘the Scottish philosophy’, the relationship between evangelicalism and Common Sense philosophy, and the process of development and adaptation that occurred in eighteenth-century Scottish thought during the first half of the nineteenth century. (shrink)

Political theorists can at times forget that the origins of political theory lie in the struggles of concrete political life. This paper focuses on one arena of political contestation: the collision between dissenters and their communities’ legal systems. It focuses on The Peoples Ancient and Just Liberties Asserted, a purported transcript of the trial of William Penn and William Mead for disturbance of the peace. The trial plays an important role in the emergent principle of jury independence and a key (...) role in Penn’s career as a political actor during the 1670s, culminating in his American colonizing enterprise. After a few remarks about the trial itself, the paper proceeds in two parts, each emphasizing an aspect of the text’s performative nature. First, akin to canonical works of the Anglo-American tradition, Peoples presents embedded principles: coherent and substantive visions of legitimate government, justified by reference to authoritative texts, arguments, and practices. But the defendants in Peoples also enact and embody political dissent in ways other than overt and explicit argumentation: Penn and Mead themselves appear as characters performing a politics of dissent. As a work of both political theory and political theater, Peoples offers insights into Deleuze’s notion of “dramatization,” and can lead us to a broader appreciation of the many different genres that constitute political theory. (shrink)